iRice-MS: An integrated XGBoost model for detecting multitype post-translational modification sites in rice

Anticancer peptides prediction with deep representation learning features

(2021) Zhibin Lv et al.   BRIEFINGS IN BIOINFORMATICS

Bioinformatic Analysis Reveals the functions of miRNA in Rice under Drought Stress

(2020) Yan Peng et al.   Current Bioinformatics

Extremely-randomized-tree-based prediction of N6-methyladenosine Sites in Saccharomyces cerevisiae

(2020) Rajiv Gandhi Govindaraj et al.   CURRENT GENOMICS

Machine intelligence in peptide therapeutics: A next‐generation tool for rapid disease screening

(2020) Shaherin Basith et al.   MEDICINAL RESEARCH REVIEWS

RF-PseU: A Random Forest Predictor for RNA Pseudouridine Sites

(2020) Zhibin Lv et al.   Frontiers in Bioengineering and Biotechnology

Accurate prediction of species-specific 2-hydroxyisobutyrylation sites based on machine learning frameworks

(2020) You-Gan Wang et al.   ANALYTICAL BIOCHEMISTRY

DeepSuccinylSite: a deep learning based approach for protein succinylation site prediction

(2020) Niraj Thapa et al.   BMC BIOINFORMATICS

Computational prediction of protein ubiquitination sites mapping on Arabidopsis thaliana

(2020) Md. Parvez Mosharaf et al.   COMPUTATIONAL BIOLOGY AND CHEMISTRY

SulSite-GTB: identification of protein S-sulfenylation sites by fusing multiple feature information and gradient tree boosting

(2020) Minghui Wang et al.   NEURAL COMPUTING & APPLICATIONS

SuccSite: Incorporating Amino Acid Composition and Informative k-spaced Amino Acid Pairs to Identify Protein Succinylation Sites

(2020) Hui-Ju Kao et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

A Convolutional Neural Network Using Dinucleotide One-hot Encoder for identifying DNA N6-Methyladenine Sites in the Rice Genome

(2020) Zhibin Lv et al.   NEUROCOMPUTING

HybridSucc: A Hybrid-learning Architecture for General and Species-specific Succinylation Site Prediction

(2020) Wanshan Ning et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

DeepKhib: A Deep-Learning Framework for Lysine 2-Hydroxyisobutyrylation Sites Prediction

(2020) Luna Zhang et al.   Frontiers in Cell and Developmental Biology

Identification of sub-Golgi protein localization by use of deep representation learning features

(2020) Zhibin Lv et al.   BIOINFORMATICS

Mal-Prec: computational prediction of protein Malonylation sites via machine learning based feature integration

(2020) Xin Liu et al.   BMC GENOMICS

Critical evaluation of web-based DNA N6-methyladenine site prediction tools

(2020) Md Mehedi Hasan et al.   Briefings in Functional Genomics

Integration of A Deep Learning Classifier with A Random Forest Approach for Predicting Malonylation Sites

(2019) Zhen Chen et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Analysis of Germin-Like Protein Genes (OsGLPs) Family in Rice Using Various In Silico Approaches

(2019) Muhammad Ilyas et al.   Current Bioinformatics

Protein Function Prediction: From Traditional Classifier to Deep Learning

(2019) Zhibin Lv et al.   PROTEOMICS

iLys-Khib: Identify lysine 2-Hydroxyisobutyrylation sites using mRMR feature selection and fuzzy SVM algorithm

(2019) Zhe Ju et al.   CHEMOMETRICS AND INTELLIGENT LABORATORY SYSTEMS

Comprehensive analysis of the lysine succinylome and protein co-modifications in developing rice seeds

(2019) Xiaoxi Meng et al.   MOLECULAR & CELLULAR PROTEOMICS

A Random Forest Sub-Golgi Protein Classifier Optimized via Dipeptide and Amino Acid Composition Features

(2019) Zhibin Lv et al.   Frontiers in Bioengineering and Biotechnology

SubMito-XGBoost: predicting protein submitochondrial localization by fusing multiple feature information and eXtreme gradient boosting

(2019) Bin Yu et al.   BIOINFORMATICS

Predicting protein phosphorylation sites based on deep learning

(2019) Haixia Long et al.   Current Bioinformatics

ConvsPPIS: Identifying Protein-protein Interaction Sites by an Ensemble Convolutional Neural Network with Feature Graph

(2019) Huaixu Zhu et al.   Current Bioinformatics

Global Proteomic Analysis Reveals Widespread Lysine Succinylation in Rice Seedlings

(2019) Kai Zhang et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

ProAcePred: prokaryote lysine acetylation sites prediction based on elastic net feature optimization

(2018) Guodong Chen et al.   BIOINFORMATICS

Predicting lysine-malonylation sites of proteins using sequence and predicted structural features

(2018) Ghazaleh Taherzadeh et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Malonylome analysis in developing rice ( Oryza sativa ) seeds suggesting that protein lysine malonylation is well-conserved and overlaps with acetylation and succinylation substantially

(2018) Hana Mujahid et al.   Journal of Proteomics

Global involvement of lysine crotonylation in protein modification and transcription regulation in rice

(2018) Shuai Liu et al.   MOLECULAR & CELLULAR PROTEOMICS

Global Proteome Analysis Links Lysine Acetylation to Diverse Functions in Oryza Sativa

(2018) Chao Xue et al.   PROTEOMICS

Large-scale prediction of protein ubiquitination sites using a multimodal deep architecture

(2018) Fei He et al.   BMC Systems Biology

PLMD: An updated data resource of protein lysine modifications

(2017) Haodong Xu et al.   Journal of Genetics and Genomics

iPTMnet: an integrated resource for protein post-translational modification network discovery

(2017) Hongzhan Huang et al.   NUCLEIC ACIDS RESEARCH

Proteome-wide Analysis of Lysine 2-hydroxyisobutyrylation in Developing Rice (Oryza sativa) Seeds

(2017) Xiaoxi Meng et al.   Scientific Reports

Identification of immunoglobulins using Chou's pseudo amino acid composition with feature selection technique

(2016) Hua Tang et al.   Molecular BioSystems

Mal-Lys: prediction of lysine malonylation sites in proteins integrated sequence-based features with mRMR feature selection

(2016) Yan Xu et al.   Scientific Reports

Comprehensive Profiling of the Rice Ubiquitome Reveals the Significance of Lysine Ubiquitination in Young Leaves

(2015) Xin Xie et al.   JOURNAL OF PROTEOME RESEARCH

Quantitative phosphoproteomic analysis of early seed development in rice (Oryza sativa L.)

(2015) Jiehua Qiu et al.   PLANT MOLECULAR BIOLOGY

Towards more accurate prediction of ubiquitination sites: a comprehensive review of current methods, tools and features

(2014) Zhen Chen et al.   BRIEFINGS IN BIOINFORMATICS

Lysine 2-hydroxyisobutyrylation is a widely distributed active histone mark

(2014) Lunzhi Dai et al.   Nature Chemical Biology

CPLM: a database of protein lysine modifications

(2013) Zexian Liu et al.   NUCLEIC ACIDS RESEARCH

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Lysine Succinylation and Lysine Malonylation in Histones

(2012) Zhongyu Xie et al.   MOLECULAR & CELLULAR PROTEOMICS

Identification of 67 Histone Marks and Histone Lysine Crotonylation as a New Type of Histone Modification

(2011) Minjia Tan et al.   CELL

Predicting post-translational lysine acetylation using support vector machines

(2010) F. Gnad et al.   BIOINFORMATICS

Musite, a Tool for Global Prediction of General and Kinase-specific Phosphorylation Sites

(2010) Jianjiong Gao et al.   MOLECULAR & CELLULAR PROTEOMICS

Post-translational modifications in signal integration

(2010) Yonathan Lissanu Deribe et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

CPLA 1.0: an integrated database of protein lysine acetylation

(2010) Zexian Liu et al.   NUCLEIC ACIDS RESEARCH

Lysine Acetylation Targets Protein Complexes and Co-Regulates Major Cellular Functions

(2009) C. Choudhary et al.   SCIENCE

Lysine Acetylation: Codified Crosstalk with Other Posttranslational Modifications

(2008) Xiang-Jiao Yang et al.   MOLECULAR CELL